Identification of Hybrids in Potamogeton: Incongruence between Plastid and ITS Regions Solved by a Novel Barcoding Marker PHYB

Autor: Tao Yang, Xing Liu, You-Hao Guo, Tian-lei Zhang
Rok vydání: 2016
Předmět:
Plant Phylogenetics
0106 biological sciences
Plant Evolution
lcsh:Medicine
Artificial Gene Amplification and Extension
Plant Science
Polymerase Chain Reaction
01 natural sciences
Database and Informatics Methods
Plastids
lcsh:Science
Phylogeny
Data Management
Multidisciplinary
Concerted evolution
biology
Phylogenetic tree
Phylogenetic Analysis
Potamogetonaceae
Phylogenetics
Chloroplast DNA
Heuristic Alignment Procedure
Software-Aided Sequence Analysis
Sequence Analysis
Research Article
Genetic Markers
Computer and Information Sciences
Evolutionary Processes
Bioinformatics
Research and Analysis Methods
010603 evolutionary biology
Botany
DNA
Ribosomal Spacer
DNA Barcoding
Taxonomic
Evolutionary Systematics
Internal transcribed spacer
Potamogeton
Plastid
Molecular Biology Techniques
Sequencing Techniques
Molecular Biology
Hybridization
Taxonomy
Hybrid
Evolutionary Biology
Molecular Biology Assays and Analysis Techniques
Chimera
lcsh:R
Biology and Life Sciences
Sequence Analysis
DNA
biology.organism_classification
Organismal Evolution
lcsh:Q
Sequence Alignment
Cloning
010606 plant biology & botany
Zdroj: PLoS ONE, Vol 11, Iss 11, p e0166177 (2016)
PLoS ONE
ISSN: 1932-6203
Popis: Potamogeton is one of the most difficult groups to clarify in aquatic plants, which has an extensive range of interspecific morphological and ecological diversity. Internal transcribed spacer (ITS) is prevalent for phylogenetic analysis in plants. However, most researches demonstrate that ITS has a high percentage of homoplasy in phylogenetic datasets. In this study, eighteen materials were collected in Potamogeton from China and incongruence was shown between the rbcL and ITS phylogenies. To solve the discrepancy, we employed a novel barcode PHYB to improve resolution and accuracy of the phylogenetic relationships. The PHYB phylogeny successfully resolved the incongruence between the rbcL and ITS phylogenies. In addition, six hybrids were confirmed using PHYB, including P. compressus × P. pusillus, P. octandrus × P. oxyphyllus, P. gramineus × P. lucens, P. distinctus × P. natans, P. distinctus × P. wrightii, and S. pectinata × S. amblyophylla. Whereas, only one hybrid was identified (P. compressus × P. pusillus) by ITS, indicating that ITS homoplasy was present in Potamogeton and ITS was completely homogenized to one parental lineage. Thus, ITS might have limited utility for phylogenetic relationships in Potamogeton. It is recommended that a three-locus combination of chloroplast DNA gene, ITS and PHYB is potential to effectively reveal more robust phylogenetic relationships and species identification.
Databáze: OpenAIRE
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